2YRW

Crystal structure of GAR synthetase from Geobacillus kaustophilus

2YRW の概要

• エントリーDOI: 10.2210/pdb2yrw/pdb
• 関連するPDBエントリー: 1GSO 2YRX
• 分子名称: Phosphoribosylglycinamide synthetase, PHOSPHATE ION (3 entities in total)
• 機能のキーワード: glycinamide ribonucleotide synthetase, gar synthetase, atp binding, purine nucleotide biosynthetic pathway, structural genomics, nppsfa, national project on protein structural and functional analyses, riken structural genomics/proteomics initiative, rsgi, ligase
• 由来する生物種: Geobacillus kaustophilus
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 48323.75

構造登録者

Baba, S.,Kanagawa, M.,Kuramitsu, S.,Yokoyama, S.,Kawai, G.,Sampei, G.,RIKEN Structural Genomics/Proteomics Initiative (RSGI) (登録日: 2007-04-03, 公開日: 2007-10-09, 最終更新日: 2023-10-25)

主引用文献

Sampei, G.,Baba, S.,Kanagawa, M.,Yanai, H.,Ishii, T.,Kawai, H.,Fukai, Y.,Ebihara, A.,Nakagawa, N.,Kawai, G.
Crystal structures of glycinamide ribonucleotide synthetase, PurD, from thermophilic eubacteria
J.Biochem., 148:429-438, 2010

PubMed Abstract: Glycinamide ribonucleotide synthetase (GAR-syn, PurD) catalyses the second reaction of the purine biosynthetic pathway; the conversion of phosphoribosylamine, glycine and ATP to glycinamide ribonucleotide (GAR), ADP and Pi. In the present study, crystal structures of GAR-syn's from Thermus thermophilus, Geobacillus kaustophilus and Aquifex aeolicus were determined in apo forms. Crystal structures in ligand-bound forms were also determined for G. kaustophilus and A. aeolicus proteins. In general, overall structures of GAR-syn's are similar to each other. However, the orientations of the B domains are varied among GAR-syn's and the MD simulation suggested the mobility of the B domain. Furthermore, it was demonstrated that the B loop in the B domain fixes the position of the β- and γ- phosphate groups of the bound ATP. The structures of GAR-syn's and the bound ligands were compared with each other in detail, and structures of GAR-syn's with full ligands, as well as the possible reaction mechanism, were proposed.

PubMed: 20716513
DOI: 10.1093/jb/mvq088

実験手法

X-RAY DIFFRACTION (2.2 Å)